Showing : annotation • reset
0
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1
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1.3k
views
Issue with annotation package mouse4302.db
mouse4302.db annotation
updated 4.0 years ago by 68k • written 4.0 years ago by • 0
1
vote
1
reply
2.1k
views
Is there any R package for filtering out SNP markers?
Tutorial annotation
updated 4.1 years ago by ★ 4.0k • written 6.3 years ago by ▴ 20
0
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1
reply
990
views
anotacion para Anopheles Albimanus
anopheles_albimanus Annotation
updated 4.1 years ago by 4.2k • written 4.1 years ago by • 0
3
votes
1
reply
3.2k
views
Converting between UCSC id and gene symbol with bioconductor annotation resources
AnnotationData AnnotationDbi annotation
updated 4.1 years ago by 68k • written 4.1 years ago by • 0
1
vote
1
reply
3.3k
views
ComplexHeatmap: Not able to change the annotations size of the heatmap
ComplexHeatmap Anno Annotation
updated 4.2 years ago by ▴ 290 • written 4.2 years ago by ▴ 10
1
vote
2
replies
4.1k
views
mapping mouse ENSEMBL ids to human gene symbol
Annotation AnnotationDbi annotate
updated 4.3 years ago by 68k • written 4.3 years ago by • 0
5
votes
10
replies
3.3k
views
How to do annotation with Limma
annotation limma
updated 4.4 years ago by ★ 4.1k • written 4.4 years ago by • 0
1
vote
2
replies
2.3k
views
trouble with ENSEMBL ids for Org.Ss.eg.db
Annotation org.Ss.eg.db AnnotationDbi
4.4 years ago carine.genet • 0
3
votes
9
replies
8.1k
views
LOC gene IDs for characterised genes in annotation files
Annotation RNAseq
updated 3.8 years ago by • 0 • written 4.5 years ago by • 0
1
vote
0
replies
1.3k
views
News: Bioconductor 3.13 db0s, OrgDbs and TxDbs now available
annotation release db0
4.5 years ago kayla.interdonato ▴ 160
8
votes
2
replies
2.5k
views
how can I annotate my scRNAseq clusters from a Rat experiment?
scRNAseq Rattus_norvegicus_Data annotation
updated 4.5 years ago by ★ 5.0k • written 4.5 years ago by ▴ 10
0
votes
9
replies
2.5k
views
The GO annotation of fugal species outside of 20 model organisms is outdated
GO biomartr annotation ensemble fungi
updated 4.5 years ago by 68k • written 4.5 years ago by • 0
2
votes
1
reply
1.2k
views
Geno Ontology Analysis using gene symbol
GO.db Annotation Clusterprofile GeneOntology
updated 4.7 years ago by ▴ 780 • written 4.7 years ago by • 0
0
votes
2
replies
2.9k
views
Annotation for Macaca fascicularis
Macaca_fascicularis annotation
updated 4.7 years ago by 68k • written 4.7 years ago by • 0
16
votes
19
replies
22k
views
DESeq2: add annotations (from data frame) to DESeqDataSet
deseq2 annotation granges
updated 3.7 years ago by ▴ 60 • written 11.0 years ago by ▴ 130
2
votes
2
replies
4.8k
views
mapping gene type or biotype to ENSEMBL ID
ensembldb biomaRt org.Hs.eg.db Annotation
updated 4.8 years ago by ★ 2.1k • written 4.8 years ago by • 0
5
votes
8
replies
3.5k
views
how to annotate arrays
affy annotation microarray oligo
updated 4.9 years ago by 68k • written 10.3 years ago by • 0
2
votes
7
replies
2.7k
views
How to generate custom annotation for rat genome rn6 in ChIPQC
ChIPQC annotation rn6
updated 22 months ago by • 0 • written 5.1 years ago by • 0
7
votes
10
replies
7.3k
views
annotating gene for transcript type/biotype
annotation homo.sapiens
updated 5.0 years ago by 68k • written 10.0 years ago by ▴ 40
2
votes
2
replies
3.0k
views
ChIP seeker annotation error
DiffBind chipseq ChIPseeker ChipDb annotation
5.0 years ago • updated 4.7 years ago Mar Mar ▴ 20
0
votes
2
replies
1.4k
views
Can we align all the names of the transcripts (GeneRegionTrack) in the plotTracks() output?
Annotation Alignment Gviz
5.0 years ago Vaibhav • 0
0
votes
4
replies
3.0k
views
Cannot properly finish biomaRt query
software error annotation biomart
updated 5.0 years ago by • 0 • written 5.4 years ago by ▴ 30
1
vote
2
replies
1.9k
views
News: Final List of Deprecated Packages for Bioc3.12
annotation software experimentdata deprecated News
5.1 years ago • updated 5.0 years ago shepherl 4.2k
0
votes
1
reply
959
views
RNAseq analysis of organism not included in BSgenome using QuasR
annotation
updated 5.0 years ago by 68k • written 5.0 years ago by • 0
4
votes
3
replies
1.2k
views
key lookup changes with AnnotationDbi version (bug?)
annotation
updated 5.0 years ago by 68k • written 5.0 years ago by ▴ 10
0
votes
1
reply
1.4k
views
News: Bioconductor 3.12 db0s, OrgDbs and TxDbs now available
annotation db0 news release News
5.0 years ago kayla.interdonato ▴ 160
0
votes
3
replies
3.0k
views
biomart archive version
annotation biomart
5.1 years ago • updated 5.0 years ago raakesh_7111 • 0
4
votes
3
replies
3.5k
views
How to resolve NAs when annotating a diff gene list with org.Hs.eg.db terms?
annotation rna
updated 5.1 years ago by 68k • written 5.1 years ago by ▴ 20
1
vote
3
replies
3.4k
views
Annotating [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [transcript (gene) version] file
microarray annotation affy
5.1 years ago kiera.lee ▴ 10
0
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3
replies
851
views
Help! How to convert S-Fe10_GL0038907 to a protein name
annotation
updated 5.1 years ago by 68k • written 5.1 years ago by • 0
3
votes
0
replies
1.9k
views
News: List of Deprecated Packages for Bioc3.12
annotation software experiment data deprecated News
5.2 years ago • updated 5.1 years ago shepherl 4.2k
0
votes
3
replies
1.9k
views
Pathway analysis of bacterial RNA-seq data
annotation rna-seq pathway analysis
5.1 years ago microPhD • 0
2
votes
2
replies
1.9k
views
R: Find all genes associated with a genomic range
annotation
updated 5.1 years ago by ★ 4.0k • written 5.1 years ago by ▴ 10
3
votes
1
reply
1.2k
views
How to use Mus.musculus in a package function without polluting namespace?
annotation
updated 5.1 years ago by 25k • written 5.1 years ago by ▴ 40
1
vote
6
replies
4.1k
views
TCGA: clinical data and expression data
microarray annotation cancer
updated 2.7 years ago by • 0 • written 5.1 years ago by • 0
1
vote
4
replies
1.5k
views
biromartr query fail
annotation
updated 5.1 years ago by ★ 6.6k • written 5.1 years ago by ▴ 10
4
votes
17
replies
3.8k
views
annotation conversion from old microarray to latest Entrez and Ensembl ID
biomaRt annotation Ensembl annotationHub
updated 5.2 years ago by ★ 4.0k • written 5.2 years ago by ▴ 10
4
votes
2
replies
2.4k
views
News: ensembldb EnsDb databases for Ensembl release 101 added to AnnotationHub
EnsDb ensembldb annotation AnnotationHub News
5.2 years ago Johannes Rainer ★ 2.1k
0
votes
2
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1.2k
views
What is Software, Annotationdata, Experimentdata and workflow category?
Software annotation experiment workflow
updated 5.2 years ago by 4.2k • written 5.2 years ago by • 0
2
votes
4
replies
2.2k
views
Error in .local(x, i, j = j, ...) : 'i' must be length 1 in using OrganismDbi to create org.XX.eg.db
annotation
updated 5.2 years ago by 68k • written 5.2 years ago by ▴ 20
6
votes
11
replies
2.8k
views
"associated_gene" attribute from biomaRt returns too few values - SNP(rsID dataset)
r biomart SNP annotation HUGO
updated 5.2 years ago by ★ 6.6k • written 5.2 years ago by • 0
2
votes
3
replies
1.2k
views
Annotation of Genomic Regions
annotation genomic regions R
updated 5.2 years ago by 68k • written 5.2 years ago by • 0
0
votes
4
replies
1.1k
views
Genomic Annotation Package Ensembl
Chromosome Annotation
updated 5.3 years ago by 68k • written 5.3 years ago by ▴ 50
0
votes
0
replies
496
views
ChIPpeakanno annotation results interpretation
annotation
5.3 years ago gisapassaia • 0
1
vote
2
replies
1.3k
views
RNA Seq from MusMusculus and HomoSapiens
tximeta tximport annotation
updated 5.3 years ago by 43k • written 5.3 years ago by • 0
2
votes
1
reply
1.4k
views
AnnotationHub errors when querying
annotation
updated 5.3 years ago by ★ 4.1k • written 5.3 years ago by ▴ 10
1
vote
3
replies
1.0k
views
Mixed-up column names for getBM()?
annotation
updated 5.3 years ago by 68k • written 5.3 years ago by • 0
3
votes
3
replies
2.7k
views
EnsDb.Rnorvegicus for Rnor6
annotation db reference rnor6
updated 5.3 years ago by ★ 4.1k • written 5.3 years ago by • 0
4
votes
6
replies
1.8k
views
Extremely big genes in annotation TxDb packages
annotation txdb AnnotationData Genetics
updated 5.3 years ago by 68k • written 5.3 years ago by ▴ 10
0
votes
4
replies
2.3k
views
Wrong annotation (TSS/TTS) for many genes: keytype="GENEID" with mapIds(TxDb.Mmusculus.UCSC.mm10.knownGene)
AnnotationDbi annotation TxDb.Mmusculus.UCSC.mm10.knownGene
updated 5.4 years ago by 68k • written 5.4 years ago by • 0
1,978 results • Page 2 of 40
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Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k
I can reproduce this and have opened an issue on the code base https://github.com/Bioconductor/support.bioconductor.org/issues/112
Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k
we can investigate this issue. thank you for bringing it to our attention
Comment: deseq2 filter the low counts by Michael Love 43k
> But within each comparison (contrast), if I trace some DEGs back to the original salmon merged gene counts (or even to normalised counts)…
Comment: deseq2 filter the low counts by empty_mt • 0
Thank you for you suggestion to look at the pre-filtering section in the DESeq2 vignettes - am I missing something? I have 6 treatments, …
Comment: deseq2 filter the low counts by Michael Love 43k
Have you seen this part: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#pre-filtering
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Bioconductor 3.22 Released!
Bioconductor 3.22 Released!
Comment: "Watched Tags" are being erased rather than updated
Comment: deseq2 filter the low counts
Answer: DESeq2 interactions
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